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geronimp
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graftM
GraftM - Rapid community profiles from metagenomes
http://geronimp.github.io/graftM/
GNU General Public License v3.0
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Changed default dereplication level to 0
#235
geronimp
closed
7 years ago
1
taxonomy file empty
#234
tv195
opened
7 years ago
0
update graftM help
#233
geronimp
closed
7 years ago
0
v0.10.0
#232
geronimp
closed
7 years ago
0
test: Update diamond DBs to a post 0.7.9 format.
#231
wwood
closed
7 years ago
2
updated README and replaced old gpkg store link to the new ACE ftp li…
#230
geronimp
closed
8 years ago
0
Too short sequences catching
#229
wwood
closed
8 years ago
1
Updated License information and added SILVA license
#228
geronimp
closed
8 years ago
1
graftm tree decorate not working when given undecorated tree?
#227
wwood
opened
8 years ago
0
graftm tree GreenGenesTaxonomy exceptions are covered up
#226
wwood
closed
7 years ago
1
Final skbio removal
#225
wwood
closed
8 years ago
1
Geronimp remove skbio from reroot
#224
geronimp
closed
8 years ago
12
Add graft --decoy_database.
#223
wwood
closed
8 years ago
5
geronimp-placement_cutoff_error
#222
geronimp
closed
8 years ago
2
Skbio removal
#221
wwood
closed
8 years ago
2
Improved GraftM help
#220
geronimp
closed
8 years ago
5
Create examples
#219
wwood
closed
8 years ago
0
mafft-linsi or similar as default for create alignment
#218
geronimp
closed
7 years ago
1
Geronimp update mode2
#217
geronimp
closed
8 years ago
4
removed incorrect file suffix
#216
geronimp
closed
8 years ago
1
Geronimp make merge reads default
#215
geronimp
closed
8 years ago
1
rename bootstrap expand_search
#214
geronimp
closed
8 years ago
3
Geronimp remove no clustering and rereplicate alignments
#213
geronimp
closed
8 years ago
4
test_graft: add test for --no_clustering
#212
wwood
closed
8 years ago
0
multijplace
#211
wwood
opened
8 years ago
0
graftm_package: add is_protein_package method
#210
wwood
closed
8 years ago
4
create: Actually use '10 sequences' file when testing
#209
wwood
closed
8 years ago
0
Create tweaks
#208
wwood
closed
8 years ago
2
create: Update logging info
#207
wwood
closed
8 years ago
0
Dendropy reannotator
#206
wwood
closed
8 years ago
5
rereplication of alignments
#205
wwood
opened
8 years ago
1
create does not remove extraneous taxonomy
#204
wwood
opened
8 years ago
1
reannotator: add failing unit test
#203
wwood
closed
8 years ago
3
Bugfix: Do not attempt to re-create the alignment HMM when not all se…
#202
geronimp
closed
8 years ago
1
Geronimp investigating pplacer issue rereplicate jplace files
#201
geronimp
closed
8 years ago
2
GraftM needs tests for classification
#200
geronimp
opened
8 years ago
0
refactoring of Run
#199
wwood
opened
8 years ago
0
Cannot specify diamond database when using --search_only option
#198
geronimp
closed
7 years ago
3
archive: new mode.
#197
wwood
closed
8 years ago
2
logging options repeated in bin/graftM code
#196
wwood
opened
8 years ago
0
create: test package works after creation
#195
wwood
closed
8 years ago
1
Conform to skbio 0.4.2.
#194
wwood
closed
8 years ago
2
taxonomy_extractor: add test for branch lengths, ref #192.
#193
wwood
closed
8 years ago
2
taxonomy not extracted correctly from trees with branch lengths?
#192
wwood
closed
8 years ago
1
create chokes when provided an annotated tree and hmm but no alignment
#191
wwood
opened
8 years ago
0
Create bugfixes
#190
wwood
closed
8 years ago
2
Geronimp investigating pplacer issue
#189
geronimp
closed
8 years ago
9
classify: assignPlacement: remove unused 'type' parameter
#188
wwood
closed
8 years ago
0
create: raise informative error when all except 1 sequence is derepli…
#187
wwood
closed
8 years ago
1
Archaea specific models in create
#186
geronimp
opened
8 years ago
0
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